miRNA display CGI


Results 1 - 20 of 25 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
24280 3' -58 NC_005263.2 + 27958 0.66 0.54793
Target:  5'- uAGAAGU----GCCCGGCG-CGAcgGCCGu -3'
miRNA:   3'- -UCUUCGagcuCGGGCCGCaGCU--UGGC- -5'
24280 3' -58 NC_005263.2 + 10153 0.66 0.537375
Target:  5'- cGAGGCggGcAGCuuGGCGUC--GCCGa -3'
miRNA:   3'- uCUUCGagC-UCGggCCGCAGcuUGGC- -5'
24280 3' -58 NC_005263.2 + 11876 0.66 0.526893
Target:  5'- cAGguGCUCGGGCUCG-CGcCGAAUCu -3'
miRNA:   3'- -UCuuCGAGCUCGGGCcGCaGCUUGGc -5'
24280 3' -58 NC_005263.2 + 18941 0.66 0.516487
Target:  5'- cGAGcGCUCGAGCgcgCCGGU-UCGAgcgcaGCCGg -3'
miRNA:   3'- uCUU-CGAGCUCG---GGCCGcAGCU-----UGGC- -5'
24280 3' -58 NC_005263.2 + 1766 0.67 0.506165
Target:  5'- cGggGC-CGAagccccGCCCgcuuagaucacGGCGuUCGAGCCGa -3'
miRNA:   3'- uCuuCGaGCU------CGGG-----------CCGC-AGCUUGGC- -5'
24280 3' -58 NC_005263.2 + 16840 0.67 0.485794
Target:  5'- cGAcAGCacuUCGAccuGCCCGGCGcCGcGCCGc -3'
miRNA:   3'- uCU-UCG---AGCU---CGGGCCGCaGCuUGGC- -5'
24280 3' -58 NC_005263.2 + 21584 0.67 0.485794
Target:  5'- ---uGCUCGccgCCGGCGUCGAcGCCGc -3'
miRNA:   3'- ucuuCGAGCucgGGCCGCAGCU-UGGC- -5'
24280 3' -58 NC_005263.2 + 30188 0.67 0.485794
Target:  5'- uGAcGUUgGAGCCCGGgG-CGcGCCGa -3'
miRNA:   3'- uCUuCGAgCUCGGGCCgCaGCuUGGC- -5'
24280 3' -58 NC_005263.2 + 12680 0.67 0.475756
Target:  5'- cGggGUcgucguucgcgUCGAGCuugCCGGCGUagGGGCCGu -3'
miRNA:   3'- uCuuCG-----------AGCUCG---GGCCGCAg-CUUGGC- -5'
24280 3' -58 NC_005263.2 + 5028 0.67 0.455996
Target:  5'- ---cGCUCGAcagccgGCCCGGCGgcCGAcuauugGCCGa -3'
miRNA:   3'- ucuuCGAGCU------CGGGCCGCa-GCU------UGGC- -5'
24280 3' -58 NC_005263.2 + 18552 0.68 0.446283
Target:  5'- aAGAAGUUCGcgcAGCCCGGCaccgguggCGucCCGg -3'
miRNA:   3'- -UCUUCGAGC---UCGGGCCGca------GCuuGGC- -5'
24280 3' -58 NC_005263.2 + 20825 0.68 0.446283
Target:  5'- cAGGcgcGGCUCG-GCCuCGcGCaGUCGGGCCa -3'
miRNA:   3'- -UCU---UCGAGCuCGG-GC-CG-CAGCUUGGc -5'
24280 3' -58 NC_005263.2 + 21104 0.68 0.39953
Target:  5'- gGGcGGCgaCGAGCCCGGCGcagCGGguGCUGc -3'
miRNA:   3'- -UCuUCGa-GCUCGGGCCGCa--GCU--UGGC- -5'
24280 3' -58 NC_005263.2 + 20561 0.69 0.390561
Target:  5'- cGAcGCUCGuGCCCGGCcuGcCGGccguGCCGa -3'
miRNA:   3'- uCUuCGAGCuCGGGCCG--CaGCU----UGGC- -5'
24280 3' -58 NC_005263.2 + 22784 0.69 0.390561
Target:  5'- cGAGGCUCGuGaacaUGGUGUCGAAgCGg -3'
miRNA:   3'- uCUUCGAGCuCgg--GCCGCAGCUUgGC- -5'
24280 3' -58 NC_005263.2 + 20979 0.69 0.390561
Target:  5'- cGAcgcGGCUgCGcGCCUGcGCGUCGAcguGCCGg -3'
miRNA:   3'- uCU---UCGA-GCuCGGGC-CGCAGCU---UGGC- -5'
24280 3' -58 NC_005263.2 + 8428 0.69 0.381724
Target:  5'- uGAAGUUCGcGUCCGGCagcaGUCG-GCCGc -3'
miRNA:   3'- uCUUCGAGCuCGGGCCG----CAGCuUGGC- -5'
24280 3' -58 NC_005263.2 + 9897 0.69 0.373022
Target:  5'- ---uGCUCGucgucggcGCgCGGCGUCGGGCCu -3'
miRNA:   3'- ucuuCGAGCu-------CGgGCCGCAGCUUGGc -5'
24280 3' -58 NC_005263.2 + 31516 0.69 0.356027
Target:  5'- ---cGCgcgCGAGCCCGGCGaacgCGucGCCGc -3'
miRNA:   3'- ucuuCGa--GCUCGGGCCGCa---GCu-UGGC- -5'
24280 3' -58 NC_005263.2 + 9172 0.69 0.356027
Target:  5'- cGAAGCcgaugcgcgacgUCGAGCUCGGCG-CGGcgcCCGg -3'
miRNA:   3'- uCUUCG------------AGCUCGGGCCGCaGCUu--GGC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.